Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MYOD1

Cell type

Cell type Class
Muscle
Cell type
RD
Primary Tissue
Skelatal Muscle
Tissue Diagnosis
Rhabdomyosarcoma

Attributes by original data submitter

Sample

source_name
RD
cell line
RD
cell type
Fusion-Negative Rhabdomyosarcoma
genotype
WT
chip-antibody
MYOD (CST, #13812)
geo_loc_name
missing
collection_date
missing

Sequenced DNA Library

library_name
GSM7720563
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixes with 1% formaldehyde for 10 min. After quenching, cells were digested to achieve chromatin fragmented to a range of 150–900 bp using Micrococcal Nuclease. Chromatin samples were immunoprecipitated overnight at 4 °C. DNA libraries were prepared using the NEBNext Ultra II DNA Library Prep kit, following manifacturer's instruction.

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg38

Number of total reads
30457754
Reads aligned (%)
87.8
Duplicates removed (%)
9.7
Number of peaks
1050 (qval < 1E-05)

hg19

Number of total reads
30457754
Reads aligned (%)
87.2
Duplicates removed (%)
10.1
Number of peaks
778 (qval < 1E-05)

Base call quality data from DBCLS SRA